The Proteomics Core enhances the research productivity of KCI members by providing the equipment and trained personnel necessary for analysis of cellular proteome composition, protein modification, protein quantitation and protein interaction. The Proteomics Core is grouped in the Basic Research Core Cluster which, in addition to the Proteomics Core, includes the Microscopy, Imaging and Cytometry Resources Core and the Animal Model and Therapeutics Evaluation Core. The services provided by the Proteomics Core have contributed to 16 peer-reviewed publications during the current review period. Proteome profiling and protein identification services utilize state-of-the-art mass spectrometer-based methods. The platforms for analyses are the Thermo Fisher Orbitrap Fusion equipped with Electron Transfer Dissociation and the Thermo Fisher Q Exactive Orbitrap. Isolated protein, gel plug and full proteome analysis are supported. Sample preparation is achieved by robotic or manual depletion of high abundance proteins, chemical labeling, digestion and solid phase extraction (SPE). A full range of sorbents including specialized sorbents such as TiO2 for isolation of phosphopeptides are available for SPE. Nanoflow HPLC from Easy-nLC 1000 and Michrom H4 platforms is utilized for analyses with a Triversa Nanomate robot available as needed. Data analysis is achieved using Mascot, Sequest-HT, X!Tandem, MaxQuant and PEAKS algorithms with secondary data analysis by Scaffold Q+ and Scaffold PTM. Results are distributed electronically using our ftp server. The Core enhances research productivity by providing a clear and easily accessible process for protein identification and for relative quantitation of proteins based on isotopic labels. Quantitation technologies supported include Spectral Counting, cICAT, iTraq, TMT, SILAC and Multiple Reaction Monitoring (MRM). Analysis of isotopically labeled samples is achieved using Proteome Discoverer, MaxQuant and the Mascot Quantitation package as appropriate. MRM analysis is achieved using the TSQ Vantage with Skyline software for experimental design and data analysis. The protein identification and quantitation component of the Proteomics Core provides KCI members access to technology for protein identification, proteomic profiling and biomarker identification. The protein interactions component of the Core provides instrumentation and services for detection of protein binding by Fluorescence Polarization (FP). The instruments in the Core produce sensitive, accurate and real time measurements of protein binding events. Thus, the protein interactions component of the Core supports investigators in interrogating protein-protein interactions and the effects of those interactions on signaling pathways and cellular function.

Agency
National Institute of Health (NIH)
Institute
National Cancer Institute (NCI)
Type
Center Core Grants (P30)
Project #
5P30CA022453-38
Application #
9836632
Study Section
Subcommittee I - Transistion to Independence (NCI)
Project Start
Project End
Budget Start
2019-12-01
Budget End
2020-11-30
Support Year
38
Fiscal Year
2020
Total Cost
Indirect Cost
Name
Wayne State University
Department
Type
DUNS #
001962224
City
Detroit
State
MI
Country
United States
Zip Code
48202
An, Myunggi; Yu, Chunsong; Xi, Jingchao et al. (2018) Induction of necrotic cell death and activation of STING in the tumor microenvironment via cationic silica nanoparticles leading to enhanced antitumor immunity. Nanoscale 10:9311-9319
Neslund-Dudas, Christine M; McBride, Russell B; Kandegedara, Ashoka et al. (2018) Association between cadmium and androgen receptor protein expression differs in prostate tumors of African American and European American men. J Trace Elem Med Biol 48:233-238
Kraniak, Janice M; Chalasani, Anita; Wallace, Margaret R et al. (2018) Development of 3D culture models of plexiform neurofibroma and initial application for phenotypic characterization and drug screening. Exp Neurol 299:289-298
Negmeldin, Ahmed T; Knoff, Joseph R; Pflum, Mary Kay H (2018) The structural requirements of histone deacetylase inhibitors: C4-modified SAHA analogs display dual HDAC6/HDAC8 selectivity. Eur J Med Chem 143:1790-1806
Tamura, Koji; Yu, Jun; Hata, Tatsuo et al. (2018) Mutations in the pancreatic secretory enzymes CPA1 and CPB1 are associated with pancreatic cancer. Proc Natl Acad Sci U S A 115:4767-4772
Wu, Jheng-Yu; Xiang, Shengyan; Zhang, Mu et al. (2018) Histone deacetylase 6 (HDAC6) deacetylates extracellular signal-regulated kinase 1 (ERK1) and thereby stimulates ERK1 activity. J Biol Chem 293:1976-1993
Pollack, Murray M; Holubkov, Richard; Reeder, Ron et al. (2018) PICU Length of Stay: Factors Associated With Bed Utilization and Development of a Benchmarking Model. Pediatr Crit Care Med 19:196-203
Bao, Xun; Wu, Jianmei; Sanai, Nader et al. (2018) A liquid chromatography with tandem mass spectrometry method for quantitating total and unbound ceritinib in patient plasma and brain tumor. J Pharm Anal 8:20-26
Matherly, Larry H; Hou, Zhanjun; Gangjee, Aleem (2018) The promise and challenges of exploiting the proton-coupled folate transporter for selective therapeutic targeting of cancer. Cancer Chemother Pharmacol 81:1-15
Ali, Arif N; Zhang, Peixin; Yung, W K Alfred et al. (2018) NRG oncology RTOG 9006: a phase III randomized trial of hyperfractionated radiotherapy (RT) and BCNU versus standard RT and BCNU for malignant glioma patients. J Neurooncol 137:39-47

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